[Bioperl-l] Bio::SearchIO blastxml for multiple queries

Jay Konieczka jayk at u.arizona.edu
Wed Mar 14 00:15:25 EDT 2007


Hi,

My blastxml output, which is supposed to contain multiple queries,  
each having multiple hits, is improperly parsed by Bio::SearchIO -  
only the first query is recognized.  I realize there has been plenty  
of talk about this issue since it arose, but I've been having trouble  
finding instructions for a patch.  Is there an easy fix for this?    
I'm running blastall version 2.2.15 (using blastn) and attempting to  
parse the output with bioperl 1.4.

Thanks for any help,

Jay

--
Jay H. Konieczka
Ph.D. Student, Antin Lab
Molecular & Cellular Biology
University of Arizona

Phone:  1.520.591.3446

1656 E. Mabel, MRB 317
Tucson, AZ 85724 USA
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